Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99799	0.919
27DAP/17DAP	1.09131	0.872
39DAP/27DAP	0.891	0.549
41DAP/39DAP	1.72542	0.422
42DAP/41DAP	1.04075	1
43DAP/42DAP	1.00505	0.937
47DAP/43DAP	0.92555	0.724
52DAP/47DAP	1.25981	0.593
57DAP/52DAP	0.99763	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90495	0.085
17DAP/reference	0.99988	1
27DAP/reference	0.98206	0.623
39DAP/reference	1.03017	0.654
41DAP/reference	0.97662	0.667
42DAP/reference	0.93307	0.029
43DAP/reference	0.99288	0.82
47DAP/reference	0.88509	0.013
52DAP/reference	0.84471	0.05
57DAP/reference	0.83393	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98773	0.782
27DAP/17DAP	1.02319	0.938
39DAP/27DAP	1.01618	0.77
41DAP/39DAP	1.03271	0.883
42DAP/41DAP	1.02792	0.852
43DAP/42DAP	0.97693	0.729
47DAP/43DAP	1.00483	0.973
52DAP/47DAP	1.03421	0.868
57DAP/52DAP	1.03592	0.783
57DAP/7DAP	1.0511	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90509	0.1
17DAP/reference	0.86388	0.014
27DAP/reference	0.98037	0.462
39DAP/reference	0.98163	0.354
41DAP/reference	0.94751	0.127
42DAP/reference	1.08323	0.308
43DAP/reference	1.04899	0.212
47DAP/reference	1.03222	0.885
52DAP/reference	0.90447	0.028
57DAP/reference	0.79572	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99483	0.93
17DAP/reference	0.96623	0.389
27DAP/reference	0.85311	0.167
39DAP/reference	1.03861	0.556
41DAP/reference	0.9946	0.649
42DAP/reference	0.97423	0.392
43DAP/reference	0.94132	0.352
47DAP/reference	0.96123	0.06
52DAP/reference	0.96017	0.327
57DAP/reference	1.00392	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89885	0.055
17DAP/reference	0.917	0.124
27DAP/reference	0.9848	0.539
39DAP/reference	0.96393	0.111
41DAP/reference	0.99454	0.754
42DAP/reference	1.20314	0.204
43DAP/reference	1.10498	0.482
47DAP/reference	0.93761	0.306
52DAP/reference	1.04379	0.904
57DAP/reference	0.83053	0.07

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98821	1
26DAP/20DAP	0.89433	1
34DAP/26DAP	0.92013	0.61
51DAP/34DAP	1.01121	0.957
52DAP/51DAP	1.03382	0.708
53DAP/52DAP	0.91122	0.621
55DAP/53DAP	0.94328	0.663
57DAP/55DAP	1.02513	1
62DAP/57DAP	1.90078
68DAP/62DAP	1.27486	0.265
68DAP/14DAP	1.06994

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19017	0.184

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.99539	0.058
Mature Green Tomato/Ripe Tomato	0.82198	0.317
Immature Eggplant/Mature Eggplant	0.79732	0.064
Ripe Pepper/Ripe Tomato	0.49619	0.224
Mature Eggplant/Ripe Tomato	1.78865	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03729	1
1-1-2/M82	0.95342	1
12-2/M82	1.15399	1
12-4/M82	0.92797	0.358
1-3/M82	0.98864	1
2-1-1/M82	1.286	0.457
2-1/M82	1.16349	1
2-6/M82	1.00211	1
3-2/M82	0.9938	1
4-1-1/M82	0.87961	0.962
4-1/M82	1.14604	0.853
4-3-2/M82	0.9749	1
4-3/M82	1.05563	1
5-3/M82	1.00085	1
6-2/M82	0.8898
6-3/M82	0.9608	1
7-1/M82	1.04844	0.598
7-2/M82	1.02566	1
9-3-2/M82	1.18058	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71184	0.321
IL2-6/WTpooled	1.02612	0.659
IL7-5/WTpooled	1.31655	1
IL7-3/WTpooled	0.80394	0.418
IL12-4/WTpooled	0.83342	0.71
IL1-4/WTpooled	0.95603	1
WT/WTpooled	1.0404	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.38992	0.699

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05748	0.823
DC3000/delta hrp 6h	0.78114	0.942
DC3000/delta hrp 12h	1.025	1
DC3000/delta hrp 24h	1.08921	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04558	0.25
DC3000 delta B/DC3000 delta AB	0.98369	0.892

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16484	1
Exp 36h	1.4209	0.371
Exp 60h	1.67458	0.399

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	1.00662	1
Var 0h	1.03339	1
Var 12h I row2-row1	1.16818	0.197
Var 12h NI row2-row1	1.02459	1
Var 36h I row2-row1	1.03643	1
Var 36h NI row2-row1	0.90117	0.61
Var 60h I row2-row1	1.16795	1
Var 60h NI row2-row1	1.01677	1
Time course 0hI-0hNI	0.99501	0.95
Time course 12hI-12hNI	0.999	1
Time course 36hI-36hNI	0.86546	0.183
Time course 60hI-60hNI	1.00865	1

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.057	0.372
transgenic ySAMdc/azygous control (breaker)	1.07212	1
transgenic ySAMdc/azygous control (red)	0.68895	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01762	0.395

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69165	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79239	0.172
Manapal/WT (break)	0.86276	0.333
Manapal/WT (red)	0.90055	0.315